Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Chromatin landscape of budding yeast acquiring H3K9 methylation and its reader molecule HP1 [ChIP-Seq]

ABSTRACT: Chromatin landscape of budding yeast acquiring H3K9 methylation and its reader molecule HP1 [ChIP-Seq]

PROVIDER: PRJNA934496 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR23350577_1.fastq.gz	Fastqsanger.gz
	SRR23350577_2.fastq.gz	Fastqsanger.gz
	SRR23350578_1.fastq.gz	Fastqsanger.gz
	SRR23350578_2.fastq.gz	Fastqsanger.gz
	SRR23350579_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 36

Similar Datasets

Chromatin landscape of budding yeast acquiring H3K9 methylation and its reader molecule HP1 [ATAC-Seq]

Project description:Histone H3 lysine 9 (H3K9) methylation and heterochromatin protein 1 (HP1) are well conserved epigenetic silencing mark and its reader molecule, and crucial for heterochromatin formation. However, the details of the importance of H3K9 methylation and HP1 in heterochromatin formation still remain unclear. One of the reason is the redundancy problem, as there are multiple reader molecules for H3K9 methylation, including HP1, and HP1 itself functions as a hub that recruits various effector molecules. To overcome the redundancy issue, we took synthetic biology approach and introduced H3K9 methylation and HP1 into budding yeast Saccharomyces cerevisiae, which does not have this system, and examined its impact on transcription and chromatin compaction. We observed that mammalian H3K9 methyltransferase can induce genome wide H3K9 di- and tri-methylation (H3K9me2,3) in budding yeast, and that HP1 accumulates over the H3K9 methylated regions. However, H3K9 methylation occurred mainly in the gene body region of the genes and excluded around TSS where H3K9ac pre-exists. Correspondingly, expression of H3K9 methyltransferase and HP1 did not affect transcription in budding yeast, including repression. ATAC-seq analysis also showed no impact on chromatin accessibility, and Hi-C-seq analysis of chromatin 3D structure revealed no significant differences. These results suggest that even though H3K9 methylation and recruitment of HP1 play essential roles in epigenetic regulation of heterochromatin, they are not sufficient to build up heterochromatin, at least at gene body regions, and further participation of effector molecules, including downstream factors of HP1, is required.

2024-02-03 | GSE224640 | GEO

Chromatin landscape of budding yeast acquiring H3K9 methylation and its reader molecule HP1 [ChIP-Seq]

2024-02-03 | GSE224639 | GEO

Chromatin landscape of budding yeast acquiring H3K9 methylation and its reader molecule HP1 [RNA-Seq]

2024-02-03 | GSE224638 | GEO

Chromatin landscape of budding yeast acquiring H3K9 methylation and its reader molecule HP1 [Micro-C XL]

2024-02-03 | GSE224636 | GEO

Chromatin landscape of budding yeast acquiring H3K9 methylation and its reader molecule HP1

Project description:Chromatin landscape of budding yeast acquiring H3K9 methylation and its reader molecule HP1

| PRJNA931989 | ENA

Chromatin landscape of budding yeast acquiring H3K9 methylation and its reader molecule HP1 [ATAC-Seq]

Project description:Chromatin landscape of budding yeast acquiring H3K9 methylation and its reader molecule HP1 [ATAC-Seq]

| PRJNA934495 | ENA

Chromatin landscape of budding yeast acquiring H3K9 methylation and its reader molecule HP1 [RNA-Seq]

Project description:Chromatin landscape of budding yeast acquiring H3K9 methylation and its reader molecule HP1 [RNA-Seq]

| PRJNA934497 | ENA

Chromatin landscape of budding yeast acquiring H3K9 methylation and its reader molecule HP1 [Micro-C XL]

Project description:Chromatin landscape of budding yeast acquiring H3K9 methylation and its reader molecule HP1 [Micro-C XL]

| PRJNA931981 | ENA

Chromatin landscape of budding yeast acquiring H3K9 methylation and its reader molecule HP1

Project description:This SuperSeries is composed of the SubSeries listed below.

2024-02-03 | GSE224641 | GEO

Phosphorylation of HP1/Swi6 relieves competition with Suv39/Clr4 on nucleosomes and enables H3K9 trimethyl spreading.

Project description:Heterochromatin formation in Schizosaccharomyces pombe requires the spreading of histone 3 (H3) Lysine 9 (K9) methylation (me) from nucleation centers by the H3K9 methylase, Suv39/Clr4, and the reader protein, HP1/Swi6. To accomplish this, Suv39/Clr4 and HP1/Swi6 have to associate with nucleosomes both nonspecifically, binding DNA and octamer surfaces and specifically, via recognition of methylated H3K9 by their respective chromodomains. However, how both proteins avoid competition for the same nucleosomes in this process is unclear. Here, we show that phosphorylation tunes the nucleosome affinity of HP1/Swi6 such that it preferentially partitions onto Suv39/Clr4’s trimethyl product rather than its unmethylated substrates. Preferential partitioning enables efficient conversion from di-to trimethylation on nucleosomes in vitro and H3K9me3 spreading in vivo. Together, our data suggests that phosphorylation of HP1/Swi6 creates a regime that relieves competition with the “read-write” mechanism of Suv39/Clr4 for productive heterochromatin spreading.

2024-12-02 | GSE271394 | GEO

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data